# -*- coding: utf-8 -*-
# vim: tabstop=4 shiftwidth=4 softtabstop=4
#
# Copyright (C) 2014-2023 GEM Foundation
#
# OpenQuake is free software: you can redistribute it and/or modify it
# under the terms of the GNU Affero General Public License as published
# by the Free Software Foundation, either version 3 of the License, or
# (at your option) any later version.
#
# OpenQuake is distributed in the hope that it will be useful,
# but WITHOUT ANY WARRANTY; without even the implied warranty of
# MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the
# GNU Affero General Public License for more details.
#
# You should have received a copy of the GNU Affero General Public License
# along with OpenQuake. If not, see <http://www.gnu.org/licenses/>.
"""\
It is possible to save a Node object into a NRML file by using the
function ``write(nodes, output)`` where output is a file
object. If you want to make sure that the generated file is valid
according to the NRML schema just open it in 'w+' mode: immediately
after writing it will be read and validated. It is also possible to
convert a NRML file into a Node object with the routine
``read(node, input)`` where input is the path name of the
NRML file or a file object opened for reading. The file will be
validated as soon as opened.
For instance an exposure file like the following::
<?xml version='1.0' encoding='utf-8'?>
<nrml xmlns="http://openquake.org/xmlns/nrml/0.4"
xmlns:gml="http://www.opengis.net/gml">
<exposureModel
id="my_exposure_model_for_population"
category="population"
taxonomySource="fake population datasource">
<description>
Sample population
</description>
<assets>
<asset id="asset_01" number="7" taxonomy="IT-PV">
<location lon="9.15000" lat="45.16667" />
</asset>
<asset id="asset_02" number="7" taxonomy="IT-CE">
<location lon="9.15333" lat="45.12200" />
</asset>
</assets>
</exposureModel>
</nrml>
can be converted as follows:
>> nrml = read(<path_to_the_exposure_file.xml>)
Then subnodes and attributes can be conveniently accessed:
>> nrml.exposureModel.assets[0]['taxonomy']
'IT-PV'
>> nrml.exposureModel.assets[0]['id']
'asset_01'
>> nrml.exposureModel.assets[0].location['lon']
'9.15000'
>> nrml.exposureModel.assets[0].location['lat']
'45.16667'
The Node class provides no facility to cast strings into Python types;
this is a job for the Node class which can be subclassed and
supplemented by a dictionary of validators.
"""
import io
import re
import sys
import operator
import collections.abc
import numpy
from openquake.baselib import hdf5
from openquake.baselib.general import CallableDict, groupby, gettemp
from openquake.baselib.node import (
node_to_xml, Node, striptag, ValidatingXmlParser, floatformat)
from openquake.hazardlib import valid, sourceconverter, InvalidFile
F64 = numpy.float64
NAMESPACE = 'http://openquake.org/xmlns/nrml/0.4'
NRML05 = 'http://openquake.org/xmlns/nrml/0.5'
GML_NAMESPACE = 'http://www.opengis.net/gml'
SERIALIZE_NS_MAP = {None: NAMESPACE, 'gml': GML_NAMESPACE}
PARSE_NS_MAP = {'nrml': NAMESPACE, 'gml': GML_NAMESPACE}
[docs]class DuplicatedID(Exception):
"""Raised when two sources with the same ID are found in a source model"""
[docs]class SourceModel(collections.abc.Sequence):
"""
A container of source groups with attributes name, investigation_time
and start_time. It is serialize on hdf5 as follows:
>> with openquake.baselib.hdf5.File('/tmp/sm.hdf5', 'w') as f:
.. f['/'] = source_model
"""
def __init__(self, src_groups, name='', investigation_time='',
start_time=''):
self.src_groups = src_groups
self.name = name
self.investigation_time = investigation_time
self.start_time = start_time
def __getitem__(self, i):
return self.src_groups[i]
def __len__(self):
return len(self.src_groups)
def __toh5__(self):
dic = {}
for i, grp in enumerate(self.src_groups):
grpname = grp.name or 'group-%d' % i
srcs = [(src.source_id, src) for src in grp
if hasattr(src, '__toh5__')]
if srcs:
dic[grpname] = hdf5.Group(srcs, {'trt': grp.trt})
attrs = dict(name=self.name,
investigation_time=self.investigation_time or 'NA',
start_time=self.start_time or 'NA')
if not dic:
raise ValueError('There are no serializable sources in %s' % self)
return dic, attrs
def __fromh5__(self, dic, attrs):
vars(self).update(attrs)
self.src_groups = []
for grp_name, grp in dic.items():
trt = grp.attrs['trt']
srcs = []
for src_id in sorted(grp):
src = grp[src_id]
src.num_ruptures = src.count_ruptures()
srcs.append(src)
grp = sourceconverter.SourceGroup(trt, srcs, grp_name)
self.src_groups.append(grp)
[docs]class GeometryModel(object):
"""
Contains a dictionary of unique sections
"""
def __init__(self, sections):
self.sections = sections
self.src_groups = []
[docs]def get_tag_version(nrml_node):
"""
Extract from a node of kind NRML the tag and the version. For instance
from '{http://openquake.org/xmlns/nrml/0.4}fragilityModel' one gets
the pair ('fragilityModel', 'nrml/0.4').
"""
version, tag = re.search(r'(nrml/[\d\.]+)\}(\w+)', nrml_node.tag).groups()
return tag, version
[docs]def to_python(fname, *args):
"""
Parse a NRML file and return an associated Python object. It works by
calling nrml.read() and node_to_obj() in sequence.
"""
[node] = read(fname)
return node_to_obj(node, fname, *args)
node_to_obj = CallableDict(keyfunc=get_tag_version, keymissing=lambda n, f: n)
# dictionary of functions with at least two arguments, node and fname
default = sourceconverter.SourceConverter(area_source_discretization=10,
rupture_mesh_spacing=10)
[docs]@node_to_obj.add(('ruptureCollection', 'nrml/0.5'))
def get_rupture_collection(node, fname, converter):
return converter.convert_node(node)
[docs]@node_to_obj.add(('geometryModel', 'nrml/0.5'))
def get_geometry_model(node, fname, converter):
return GeometryModel(converter.convert_node(node))
[docs]@node_to_obj.add(('sourceModel', 'nrml/0.4'))
def get_source_model_04(node, fname, converter=default):
sources = []
converter.fname = fname
for src_node in node:
src = converter.convert_node(src_node)
if src is None:
continue
sources.append(src)
groups = groupby(
sources, operator.attrgetter('tectonic_region_type'))
src_groups = sorted(sourceconverter.SourceGroup(
trt, srcs, min_mag=converter.minimum_magnitude)
for trt, srcs in groups.items())
return SourceModel(src_groups, node.get('name', ''))
[docs]@node_to_obj.add(('sourceModel', 'nrml/0.5'))
def get_source_model_05(node, fname, converter=default):
converter.fname = fname
source_ids = []
groups = [] # expect a sequence of sourceGroup nodes
for src_group in node:
if 'sourceGroup' not in src_group.tag:
raise InvalidFile(
'%s: you have an incorrect declaration '
'xmlns="http://openquake.org/xmlns/nrml/0.5"; it should be '
'xmlns="http://openquake.org/xmlns/nrml/0.4"' % fname)
sg = converter.convert_node(src_group)
if sg and len(sg):
# a source group can be empty if the source_id filtering is on
for src in sg:
source_ids.append(src.source_id)
groups.append(sg)
itime = node.get('investigation_time')
if itime is not None:
itime = valid.positivefloat(itime)
stime = node.get('start_time')
if stime is not None:
stime = valid.positivefloat(stime)
return SourceModel(sorted(groups), node.get('name'), itime, stime)
validators = {
'backarc': valid.boolean,
'strike': valid.strike_range,
'dip': valid.dip_range,
'rake': valid.rake_range,
'magnitude': valid.positivefloat,
'lon': valid.longitude,
'lat': valid.latitude,
'depth': valid.float_,
'upperSeismoDepth': valid.float_,
'lowerSeismoDepth': valid.float_,
'posList': valid.posList,
'pos': valid.lon_lat,
'aValue': float,
'a_val': valid.floats,
'bValue': valid.positivefloat,
'b_val': valid.positivefloats,
'cornerMag': valid.positivefloat,
'magScaleRel': valid.mag_scale_rel,
'tectonicRegion': str,
'ruptAspectRatio': valid.positivefloat,
'maxMag': valid.positivefloat,
'minMag': valid.positivefloat,
'min_mag': valid.positivefloats,
'max_mag': valid.positivefloats,
'lengths': valid.positiveints,
'size': valid.positiveint,
'binWidth': valid.positivefloat,
'bin_width': valid.positivefloats,
'probability': valid.probability,
'occurRates': valid.positivefloats, # they can be > 1
'weight': valid.probability,
'uncertaintyModel': valid.uncertainty_model,
'uncertaintyWeight': float,
'alongStrike': valid.probability,
'downDip': valid.probability,
'slipRate': valid.positivefloat,
'slip': valid.positivefloat,
'rigidity': valid.positivefloat,
'totalMomentRate': valid.positivefloat,
'characteristicRate': valid.positivefloat,
'char_rate': valid.positivefloats,
'characteristicMag': valid.positivefloat,
'char_mag': valid.positivefloats,
'magnitudes': valid.positivefloats,
'id': valid.simple_id,
'occurrence_rate': valid.positivefloat,
'rupture.id': valid.positiveint,
'ruptureId': valid.positiveint,
'discretization': valid.compose(valid.positivefloat, valid.nonzero),
'IML': valid.positivefloats, # used in NRML 0.4
'imt': valid.intensity_measure_type,
'imls': valid.positivefloats,
'poes': valid.positivefloats,
'description': valid.utf8_not_empty,
'noDamageLimit': valid.NoneOr(valid.positivefloat),
'poEs': valid.probabilities,
'gsimTreePath': lambda v: v.split('_'),
'sourceModelTreePath': lambda v: v.split('_'),
'IMT': str,
'saPeriod': valid.positivefloat,
'saDamping': valid.positivefloat,
'quantileValue': valid.positivefloat,
'investigationTime': valid.positivefloat,
'poE': valid.probability,
'periods': valid.positivefloats,
'IMLs': valid.positivefloats,
'magBinEdges': valid.integers,
'distBinEdges': valid.integers,
'epsBinEdges': valid.integers,
'lonBinEdges': valid.longitudes,
'latBinEdges': valid.latitudes,
'type': valid.simple_id,
'dims': valid.positiveints,
'iml': valid.positivefloat,
'index': valid.positiveints,
'value': valid.positivefloat,
'assetLifeExpectancy': valid.positivefloat,
'interestRate': valid.positivefloat,
'statistics': valid.Choice('mean', 'quantile'),
'gmv': valid.positivefloat,
'spacing': valid.positivefloat,
'srcs_weights': valid.positivefloats,
'grp_probability': valid.probability,
}
[docs]def read_source_models(fnames, converter):
"""
:param fnames:
list of source model files
:param converter:
a :class:`openquake.hazardlib.sourceconverter.SourceConverter` instance
:yields:
SourceModel instances
"""
for fname in fnames:
if fname.endswith(('.xml', '.nrml')):
sm = to_python(fname, converter)
else:
raise ValueError('Unrecognized extension in %s' % fname)
sm.fname = fname
# check investigation time for NonParametricSeismicSources
cit = converter.investigation_time
np = [s for sg in sm.src_groups for s in sg if hasattr(s, 'data')]
if np and sm.investigation_time != cit:
raise ValueError(
'The source model %s contains an investigation_time '
'of %s, while the job.ini has %s' % (
fname, sm.investigation_time, cit))
yield sm
[docs]def read(source, stop=None):
"""
Convert a NRML file into a validated Node object. Keeps
the entire tree in memory.
:param source:
a file name or file object open for reading
"""
vparser = ValidatingXmlParser(validators, stop)
nrml = vparser.parse_file(source)
if striptag(nrml.tag) != 'nrml':
raise ValueError('%s: expected a node of kind nrml, got %s' %
(source, nrml.tag))
# extract the XML namespace URL ('http://openquake.org/xmlns/nrml/0.5')
xmlns = nrml.tag.split('}')[0][1:]
nrml['xmlns'] = xmlns
nrml['xmlns:gml'] = GML_NAMESPACE
return nrml
[docs]def write(nodes, output=sys.stdout, fmt='%.7E', gml=True, xmlns=None,
commentstr=None):
"""
Convert nodes into a NRML file. output must be a file
object open in write mode. If you want to perform a
consistency check, open it in read-write mode, then it will
be read after creation and validated.
:params nodes: an iterable over Node objects
:params output: a file-like object in write or read-write mode
:param fmt: format used for writing the floats (default '%.7E')
:param gml: add the http://www.opengis.net/gml namespace
:param xmlns: NRML namespace like http://openquake.org/xmlns/nrml/0.4
:param commentstr: optional comment to be written on top of the NRML file
"""
root = Node('nrml', nodes=nodes)
namespaces = {xmlns or NRML05: ''}
if gml:
namespaces[GML_NAMESPACE] = 'gml:'
with floatformat(fmt):
node_to_xml(root, output, namespaces)
if commentstr:
output.write(commentstr.encode('utf8'))
if hasattr(output, 'mode') and '+' in output.mode: # read-write mode
output.seek(0)
read(output) # validate the written file
[docs]def to_string(node):
"""
Convert a node into a string in NRML format
"""
with io.BytesIO() as f:
write([node], f)
return f.getvalue().decode('utf-8')
[docs]def get(xml, investigation_time=50., rupture_mesh_spacing=5.,
width_of_mfd_bin=1.0, area_source_discretization=10):
"""
:param xml: the XML representation of a source
:param investigation_time: investigation time
:param rupture_mesh_spacing: rupture mesh spacing
:param width_of_mfd_bin: width of MFD bin
:param area_source_discretization: area source discretization
:returns: a python source object
"""
text = '''<?xml version='1.0' encoding='UTF-8'?>
<nrml xmlns="http://openquake.org/xmlns/nrml/0.4"
xmlns:gml="http://www.opengis.net/gml">
%s
</nrml>''' % xml
[node] = read(gettemp(text))
conv = sourceconverter.SourceConverter(
investigation_time,
rupture_mesh_spacing,
width_of_mfd_bin=width_of_mfd_bin,
area_source_discretization=area_source_discretization)
src = conv.convert_node(node)
src.grp_id = src.id = 0
return src
if __name__ == '__main__':
import sys
for fname in sys.argv[1:]:
print('****** %s ******' % fname)
print(read(fname).to_str())
print()
